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https://doi.org/10.21256/zhaw-26413| Publication type: | Article in scientific journal |
| Type of review: | Peer review (publication) |
| Title: | Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm |
| Authors: | Bliven, Spencer E. Lafita, Aleix Rose, Peter W. Capitani, Guido Prlić, Andreas Bourne, Philip E. |
| et. al: | No |
| DOI: | 10.1371/journal.pcbi.1006842 10.21256/zhaw-26413 |
| Published in: | PLOS Computational Biology |
| Volume(Issue): | 15 |
| Issue: | 4 |
| Page(s): | e1006842 |
| Issue Date: | 2019 |
| Publisher / Ed. Institution: | Public Library of Science |
| ISSN: | 1553-7358 |
| Language: | English |
| Subject (DDC): | 572: Biochemistry |
| Abstract: | Many proteins fold into highly regular and repetitive three dimensional structures. The analysis of structural patterns and repeated elements is fundamental to understand protein function and evolution. We present recent improvements to the CE-Symm tool for systematically detecting and analyzing the internal symmetry and structural repeats in proteins. In addition to the accurate detection of internal symmetry, the tool is now capable of i) reporting the type of symmetry, ii) identifying the smallest repeating unit, iii) describing the arrangement of repeats with transformation operations and symmetry axes, and iv) comparing the similarity of all the internal repeats at the residue level. CE-Symm 2.0 helps the user investigate proteins with a robust and intuitive sequence-to-structure analysis, with many applications in protein classification, functional annotation and evolutionary studies. We describe the algorithmic extensions of the method and demonstrate its applications to the study of interesting cases of protein evolution. |
| URI: | https://digitalcollection.zhaw.ch/handle/11475/26413 |
| Related research data: | https://github.com/rcsb/symmetry-benchmark |
| Fulltext version: | Published version |
| License (according to publishing contract): | CC BY 4.0: Attribution 4.0 International |
| Departement: | Life Sciences and Facility Management |
| Organisational Unit: | Institute of Computational Life Sciences (ICLS) |
| Appears in collections: | Publikationen Life Sciences und Facility Management |
Files in This Item:
| File | Description | Size | Format | |
|---|---|---|---|---|
| 2019_Bliven-etal_Structural-repeats-in-proteins-arrangement-analysis-with-CE-Symm.pdf | 2.32 MB | Adobe PDF |  View/Open |
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Bliven, S. E., Lafita, A., Rose, P. W., Capitani, G., Prlić, A., & Bourne, P. E. (2019). Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. PLOS Computational Biology, 15(4), e1006842. https://doi.org/10.1371/journal.pcbi.1006842
Bliven, S.E. et al. (2019) ‘Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm’, PLOS Computational Biology, 15(4), p. e1006842. Available at: https://doi.org/10.1371/journal.pcbi.1006842.
S. E. Bliven, A. Lafita, P. W. Rose, G. Capitani, A. Prlić, and P. E. Bourne, “Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm,” PLOS Computational Biology, vol. 15, no. 4, p. e1006842, 2019, doi: 10.1371/journal.pcbi.1006842.
BLIVEN, Spencer E., Aleix LAFITA, Peter W. ROSE, Guido CAPITANI, Andreas PRLIĆ und Philip E. BOURNE, 2019. Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. PLOS Computational Biology. 2019. Bd. 15, Nr. 4, S. e1006842. DOI 10.1371/journal.pcbi.1006842
Bliven, Spencer E., Aleix Lafita, Peter W. Rose, Guido Capitani, Andreas Prlić, and Philip E. Bourne. 2019. “Analyzing the Symmetrical Arrangement of Structural Repeats in Proteins with CE-Symm.” PLOS Computational Biology 15 (4): e1006842. https://doi.org/10.1371/journal.pcbi.1006842.
Bliven, Spencer E., et al. “Analyzing the Symmetrical Arrangement of Structural Repeats in Proteins with CE-Symm.” PLOS Computational Biology, vol. 15, no. 4, 2019, p. e1006842, https://doi.org/10.1371/journal.pcbi.1006842.
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